7 days cells condition¶Project description: Initial datasets shared by Australian collaborators (Tassiani Sarretto, Helena Anastacio). Three conditions (stem cells, cells grown for 7 and 14 days). 12 replicates per condition. One slide (TS36) including cells grown 7 days was excluded from this analysis (possible batch effects...?)
Date: 2023-05-30
Config: /Users/alberto-mac/Documents/DA_ESPORTARE/LOCAL_EMBL_FILES/g_shared/shared/alberto/projects/spacem-reports/australia-project/initial_reports/plots_without_TS36/config_ion_images_DE_markers.yml
Notebook version: v0.2.0.post3+g966cb55.d20230408 (git-commit: 9f02807)
growthConditionsslideFalsereplicate_nb_overallNone/Users/alberto-mac/Documents/DA_ESPORTARE/LOCAL_EMBL_FILES/g_shared/shared/alberto/projects/spacem-reports/australia-project/initial_reports/anndatas/{slide}-well{well}-{row}{col}.h5adAnnDatas downloaded from Metaspace/Users/alberto-mac/Documents/DA_ESPORTARE/LOCAL_EMBL_FILES/g_shared/shared/alberto/projects/spacem-reports/australia-project/initial_reports/metadata_mod_full.csvAnnotation done at FDR 50% against the following databases: HMDB v4, SwissLipids 2018-02-02, KEGG v1
Ion images with TIC normalization: True
Joint colormap: for all wells/datasets, the same colormap is used to represent ion intensities.
(2-{1,2-dihydroxy-3-[hydroxy(3,4,5-trihydroxyoxan-2-yl)methyl]-5-[(2E)-3-(4-hydroxyphenyl)prop-2-enoyl]-4,6-dioxocyclohex-2-en-1-yl}-3,5-dihydroxy-6-(hydroxymethyl)oxan-4-yl)oxidanesulfonic acid, (2-{1,2-dihydroxy-3-[hydroxy(3,4,5-trihydroxyoxan-2-yl)methyl]-5-[(2E)-3-(4-hydroxyphenyl)prop-2-enoyl]-4,6-dioxocyclohex-2-en-1-yl}-4,5-dihydroxy-6-(hydroxymethyl)oxan-3-yl)oxidanesulfonic acid, (2-{1,2-dihydroxy-5-[hydroxy(3,4,5-trihydroxyoxan-2-yl)methyl]-3-[(2E)-3-(4-hydroxyphenyl)prop-2-enoyl]-4,6-dioxocyclohex-2-en-1-yl}-3,5-dihydroxy-6-(hydroxymethyl)oxan-4-yl)oxidanesulfonic acid, (2-{1,2-dihydroxy-5-[hydroxy(3,4,5-trihydroxyoxan-2-yl)methyl]-3-[(2E)-3-(4-hydroxyphenyl)prop-2-enoyl]-4,6-dioxocyclohex-2-en-1-yl}-4,5-dihydroxy-6-(hydroxymethyl)oxan-3-yl)oxidanesulfonic acid, (6-{1,2-dihydroxy-3-[hydroxy(3,4,5-trihydroxyoxan-2-yl)methyl]-5-[(2E)-3-(4-hydroxyphenyl)prop-2-enoyl]-4,6-dioxocyclohex-2-en-1-yl}-4,5-dihydroxy-2-(hydroxymethyl)oxan-3-yl)oxidanesulfonic acid, (6-{1,2-dihydroxy-5-[hydroxy(3,4,5-trihydroxyoxan-2-yl)methyl]-3-[(2E)-3-(4-hydroxyphenyl)prop-2-enoyl]-4,6-dioxocyclohex-2-en-1-yl}-4,5-dihydroxy-2-(hydroxymethyl)oxan-3-yl)oxidanesulfonic acid, ({2,3,4-trihydroxy-5-[(2E)-3-(4-hydroxyphenyl)prop-2-enoyl]-6-oxo-3-[3,4,5-trihydroxy-6-(hydroxymethyl)oxan-2-yl]cyclohexa-1,4-dien-1-yl}(3,4,5-trihydroxyoxan-2-yl)methoxy)sulfonic acid, ({2,3-dihydroxy-5-[(2E)-3-(4-hydroxyphenyl)prop-2-enoyl]-4,6-dioxo-3-[3,4,5-trihydroxy-6-(hydroxymethyl)oxan-2-yl]cyclohex-1-en-1-yl}(3,4,5-trihydroxyoxan-2-yl)methoxy)sulfonic acid, ({4,5-dihydroxy-3-[(2E)-3-(4-hydroxyphenyl)prop-2-enoyl]-2,6-dioxo-5-[3,4,5-trihydroxy-6-(hydroxymethyl)oxan-2-yl]cyclohex-3-en-1-yl}(3,4,5-trihydroxyoxan-2-yl)methoxy)sulfonic acid, [2-({2,3-dihydroxy-5-[(2E)-3-(4-hydroxyphenyl)prop-2-enoyl]-4,6-dioxo-3-[3,4,5-trihydroxy-6-(hydroxymethyl)oxan-2-yl]cyclohex-1-en-1-yl}(hydroxy)methyl)-3,5-dihydroxyoxan-4-yl]oxidanesulfonic acid, [2-({2,3-dihydroxy-5-[(2E)-3-(4-hydroxyphenyl)prop-2-enoyl]-4,6-dioxo-3-[3,4,5-trihydroxy-6-(hydroxymethyl)oxan-2-yl]cyclohex-1-en-1-yl}(hydroxy)methyl)-4,5-dihydroxyoxan-3-yl]oxidanesulfonic acid, [2-({4,5-dihydroxy-3-[(2E)-3-(4-hydroxyphenyl)prop-2-enoyl]-2,6-dioxo-5-[3,4,5-trihydroxy-6-(hydroxymethyl)oxan-2-yl]cyclohex-3-en-1-yl}(hydroxy)methyl)-3,5-dihydroxyoxan-4-yl]oxidanesulfonic acid, [2-({4,5-dihydroxy-3-[(2E)-3-(4-hydroxyphenyl)prop-2-enoyl]-2,6-dioxo-5-[3,4,5-trihydroxy-6-(hydroxymethyl)oxan-2-yl]cyclohex-3-en-1-yl}(hydroxy)methyl)-4,5-dihydroxyoxan-3-yl]oxidanesulfonic acid, [3,5-dihydroxy-2-(hydroxymethyl)-6-{1,2,6-trihydroxy-3-[hydroxy(3,4,5-trihydroxyoxan-2-yl)methyl]-5-[(2E)-3-(4-hydroxyphenyl)prop-2-enoyl]-4-oxocyclohexa-2,5-dien-1-yl}oxan-4-yl]oxidanesulfonic acid, [4,5-dihydroxy-2-(hydroxymethyl)-6-{1,2,6-trihydroxy-3-[hydroxy(3,4,5-trihydroxyoxan-2-yl)methyl]-5-[(2E)-3-(4-hydroxyphenyl)prop-2-enoyl]-4-oxocyclohexa-2,5-dien-1-yl}oxan-3-yl]oxidanesulfonic acid, [4,5-dihydroxy-6-(hydroxymethyl)-2-{1,2,6-trihydroxy-3-[hydroxy(3,4,5-trihydroxyoxan-2-yl)methyl]-5-[(2E)-3-(4-hydroxyphenyl)prop-2-enoyl]-4-oxocyclohexa-2,5-dien-1-yl}oxan-3-yl]oxidanesulfonic acid, [6-({2,3-dihydroxy-5-[(2E)-3-(4-hydroxyphenyl)prop-2-enoyl]-4,6-dioxo-3-[3,4,5-trihydroxy-6-(hydroxymethyl)oxan-2-yl]cyclohex-1-en-1-yl}(hydroxy)methyl)-4,5-dihydroxyoxan-3-yl]oxidanesulfonic acid, [6-({4,5-dihydroxy-3-[(2E)-3-(4-hydroxyphenyl)prop-2-enoyl]-2,6-dioxo-5-[3,4,5-trihydroxy-6-(hydroxymethyl)oxan-2-yl]cyclohex-3-en-1-yl}(hydroxy)methyl)-4,5-dihydroxyoxan-3-yl]oxidanesulfonic acid, [(3,4,5-trihydroxy-6-{1,2,6-trihydroxy-3-[hydroxy(3,4,5-trihydroxyoxan-2-yl)methyl]-5-[(2E)-3-(4-hydroxyphenyl)prop-2-enoyl]-4-oxocyclohexa-2,5-dien-1-yl}oxan-2-yl)methoxy]sulfonic acid, [(6-{1,2-dihydroxy-3-[hydroxy(3,4,5-trihydroxyoxan-2-yl)methyl]-5-[(2E)-3-(4-hydroxyphenyl)prop-2-enoyl]-4,6-dioxocyclohex-2-en-1-yl}-3,4,5-trihydroxyoxan-2-yl)methoxy]sulfonic acid, [(6-{1,2-dihydroxy-5-[hydroxy(3,4,5-trihydroxyoxan-2-yl)methyl]-3-[(2E)-3-(4-hydroxyphenyl)prop-2-enoyl]-4,6-dioxocyclohex-2-en-1-yl}-3,4,5-trihydroxyoxan-2-yl)methoxy]sulfonic acid, {3,5-dihydroxy-2-[hydroxy({2,3,4-trihydroxy-5-[(2E)-3-(4-hydroxyphenyl)prop-2-enoyl]-6-oxo-3-[3,4,5-trihydroxy-6-(hydroxymethyl)oxan-2-yl]cyclohexa-1,4-dien-1-yl})methyl]oxan-4-yl}oxidanesulfonic acid, {4,5-dihydroxy-2-[hydroxy({2,3,4-trihydroxy-5-[(2E)-3-(4-hydroxyphenyl)prop-2-enoyl]-6-oxo-3-[3,4,5-trihydroxy-6-(hydroxymethyl)oxan-2-yl]cyclohexa-1,4-dien-1-yl})methyl]oxan-3-yl}oxidanesulfonic acid, {4,5-dihydroxy-6-[hydroxy({2,3,4-trihydroxy-5-[(2E)-3-(4-hydroxyphenyl)prop-2-enoyl]-6-oxo-3-[3,4,5-trihydroxy-6-(hydroxymethyl)oxan-2-yl]cyclohexa-1,4-dien-1-yl})methyl]oxan-3-yl}oxidanesulfonic acid, {4-[(1E)-3-oxo-3-{2,3,4-trihydroxy-5-[hydroxy(3,4,5-trihydroxyoxan-2-yl)methyl]-6-oxo-3-[3,4,5-trihydroxy-6-(hydroxymethyl)oxan-2-yl]cyclohexa-1,4-dien-1-yl}prop-1-en-1-yl]phenyl}oxidanesulfonic acid, {4-[(1E)-3-{2,3-dihydroxy-5-[hydroxy(3,4,5-trihydroxyoxan-2-yl)methyl]-4,6-dioxo-3-[3,4,5-trihydroxy-6-(hydroxymethyl)oxan-2-yl]cyclohex-1-en-1-yl}-3-oxoprop-1-en-1-yl]phenyl}oxidanesulfonic acid, {4-[(1E)-3-{4,5-dihydroxy-3-[hydroxy(3,4,5-trihydroxyoxan-2-yl)methyl]-2,6-dioxo-5-[3,4,5-trihydroxy-6-(hydroxymethyl)oxan-2-yl]cyclohex-3-en-1-yl}-3-oxoprop-1-en-1-yl]phenyl}oxidanesulfonic acid
Joint colormap: for all wells/datasets, the same colormap is used to represent ion intensities.
Carindone, Glyuranolide
Joint colormap: for all wells/datasets, the same colormap is used to represent ion intensities.
PA(13:0/18:2(9Z,11E)), PA(13:0/18:2(9Z,12Z)), PA(15:0/16:2(9Z,12Z)), PA(16:2(9Z,12Z)/15:0), PA(18:2(9Z,11E)/13:0), PA(18:2(9Z,12Z)/13:0), PA(a-13:0/18:2(9Z,11Z)), PA(i-13:0/18:2(9Z,11Z))
Joint colormap: for all wells/datasets, the same colormap is used to represent ion intensities.
PC(2:0/24:1(15Z)), PC(4:0/22:1(13Z)), PC(6:0/20:1(11Z)), PC(8:0/18:1(6Z)), PC(8:0/18:1(9Z)), PC(8:0/18:1(11E)), PC(8:0/18:1(11Z)), PC(10:0/16:1(6Z)), PC(10:0/16:1(9Z)), PC(12:0/14:1(9Z)), PC(14:1(9Z)/12:0), PC(16:1(6Z)/10:0), PC(16:1(9Z)/10:0), PC(18:1(6Z)/8:0), PC(18:1(9Z)/8:0), PC(18:1(11E)/8:0), PC(18:1(11Z)/8:0), PC(20:1(11Z)/6:0), PC(22:1(13Z)/4:0), PC(24:1(15Z)/2:0), PE(3:0/26:1(17Z)), PE(13:0/16:1(6Z)), PE(13:0/16:1(9Z)), PE(14:1(9Z)/15:0), PE(15:0/14:1(9Z)), PE(16:1(6Z)/13:0), PE(16:1(9Z)/13:0), PE(26:1(17Z)/3:0), PE-NMe(14:0/14:1(9Z)), PE-NMe(14:1(9Z)/14:0)
Joint colormap: for all wells/datasets, the same colormap is used to represent ion intensities.
1-Hexadecanoyl-2-(9Z-octadecenoyl)-sn-glycero-3-phosphate, 9-Octadecenoic acid 1-[[(1-oxohexadecyl)oxy]methyl]-2-(phosphonoxy)ethyl ester, PA(8:0/26:1(17Z)), PA(10:0/24:1(15Z)), PA(12:0/22:1(13Z)), PA(14:0/20:1(11Z)), PA(14:1(9Z)/20:0), PA(16:0/18:1(6Z)), PA(16:0/18:1(9Z)), PA(16:0/18:1(11E)), PA(16:0/18:1(11Z)), PA(16:1(6Z)/18:0), PA(16:1(9Z)/18:0), PA(18:0/16:1(6Z)), PA(18:0/16:1(9Z)), PA(18:1(6Z)/16:0), PA(18:1(9Z)/16:0), PA(18:1(11E)/16:0), PA(18:1(11Z)/16:0), PA(20:0/14:1(9Z)), PA(20:1(11Z)/14:0), PA(22:1(13Z)/12:0), PA(24:1(15Z)/10:0), PA(26:1(17Z)/8:0)
Joint colormap: for all wells/datasets, the same colormap is used to represent ion intensities.
3-Sn-phosphatidylethanolamine, PC(3:0/26:0), PC(8:0/21:0), PC(10:0/19:0), PC(12:0/17:0), PC(13:0/16:0), PC(14:0/15:0), PC(15:0/14:0), PC(16:0/13:0), PC(17:0/12:0), PC(19:0/10:0), PC(21:0/8:0), PC(26:0/3:0), PE(2:0/30:0), PE(4:0/28:0), PE(6:0/26:0), PE(8:0/24:0), PE(10:0/22:0), PE(12:0/20:0), PE(13:0/19:0), PE(14:0/18:0), PE(15:0/17:0), PE(16:0/16:0), PE(17:0/15:0), PE(18:0/14:0), PE(19:0/13:0), PE(20:0/12:0), PE(22:0/10:0), PE(24:0/8:0), PE(26:0/6:0), PE(28:0/4:0), PE(30:0/2:0), PE-NMe2(14:0/16:0), PE-NMe2(15:0/15:0), PE-NMe2(16:0/14:0), PE-NMe(15:0/16:0), PE-NMe(16:0/15:0)
Joint colormap: for all wells/datasets, the same colormap is used to represent ion intensities.
PG(O-13:0/22:3(10Z,13Z,16Z)), PG(O-15:0/20:3(8Z,11Z,14Z)), PG(O-15:0/20:3(11Z,14Z,17Z)), PG(O-17:0/18:3(6Z,9Z,12Z)), PG(O-17:0/18:3(9Z,12Z,15Z)), PG(P-13:0/22:2(13Z,16Z)), PG(P-15:0/20:2(11Z,14Z)), PG(P-17:0/18:2(9Z,11E)), PG(P-17:0/18:2(9Z,12Z)), PG(P-18:2(9Z,12Z)/17:0)
Joint colormap: for all wells/datasets, the same colormap is used to represent ion intensities.
PS(O-13:0/22:1(13Z)), PS(O-15:0/20:1(11Z)), PS(O-17:0/18:1(6Z)), PS(O-17:0/18:1(9Z)), PS(O-17:0/18:1(11E)), PS(O-17:0/18:1(11Z)), PS(O-18:1(9Z)/17:0), PS(O-18:1(11Z)/17:0), PS(O-18:1(13Z)/17:0), PS(O-20:1(11Z)/15:0), PS(O-22:1(13Z)/13:0), PS(P-13:0/22:0), PS(P-14:0/21:0), PS(P-15:0/20:0), PS(P-16:0/19:0), PS(P-17:0/18:0), PS(P-18:0/17:0), PS(P-20:0/15:0), PS(P-22:0/13:0)
Joint colormap: for all wells/datasets, the same colormap is used to represent ion intensities.
13-Demethylspirolide C, Spirolide A
Joint colormap: for all wells/datasets, the same colormap is used to represent ion intensities.
IPC(d18:0/20:1(11Z)), IPC(d20:0/18:1(9Z))
Joint colormap: for all wells/datasets, the same colormap is used to represent ion intensities.
PA(O-14:0/28:0), PA(O-16:0/26:0), PA(O-18:0/24:0), PA(O-20:0/22:0), PA(O-22:0/20:0), PA(O-24:0/18:0), PA(O-26:0/16:0), PA(O-28:0/14:0), PA(O-30:0/12:0)
Joint colormap: for all wells/datasets, the same colormap is used to represent ion intensities.
1,2-di-(4Z,7Z,10Z,13Z,16Z,19Z-docosahexaenoyl)-sn-glycerol, 1,3-di-(4Z,7Z,10Z,13Z,16Z,19Z-docosahexaenoyl)-sn-glycerol, 2,3-di-(4Z,7Z,10Z,13Z,16Z,19Z-docosahexaenoyl)-sn-glycerol, DG(22:6(4Z,7Z,10Z,13Z,16Z,19Z)/22:6(4Z,7Z,10Z,13Z,16Z,19Z)/0:0), DG(22:6n3/0:0/22:6n3)
Joint colormap: for all wells/datasets, the same colormap is used to represent ion intensities.
PA(O-13:0/32:6(14Z,17Z,20Z,23Z,26Z,29Z)), PA(O-15:0/30:6(12Z,15Z,18Z,21Z,24Z,27Z)), PA(O-17:0/28:6(10Z,13Z,16Z,19Z,22Z,25Z)), PA(P-13:0/32:5(14Z,17Z,20Z,23Z,26Z)), PA(P-13:0/32:5(17Z,20Z,23Z,26Z,29Z)), PA(P-15:0/30:5(12Z,15Z,18Z,21Z,24Z)), PA(P-15:0/30:5(15Z,18Z,21Z,24Z,27Z)), PA(P-17:0/28:5(10Z,13Z,16Z,19Z,22Z)), PA(P-17:0/28:5(13Z,16Z,19Z,22Z,25Z))
Joint colormap: for all wells/datasets, the same colormap is used to represent ion intensities.
GlcCer(d15:1(4E)/28:6(10Z,13Z,16Z,19Z,22Z,25Z)), GlcCer(iso-d17:1(4E)/26:6(8Z,11Z,14Z,17Z,20Z,23Z))
Joint colormap: for all wells/datasets, the same colormap is used to represent ion intensities.
TG(O-13:0/14:1(9Z)/22:6(4Z,7Z,10Z,13Z,16Z,19Z)), TG(O-13:0/16:2(9Z,12Z)/20:5(5Z,8Z,11Z,14Z,17Z)), TG(O-13:0/18:3(6Z,9Z,12Z)/18:4(6Z,9Z,12Z,15Z)), TG(O-13:0/18:3(9Z,12Z,15Z)/18:4(6Z,9Z,12Z,15Z)), TG(O-13:0/18:4(6Z,9Z,12Z,15Z)/18:3(6Z,9Z,12Z)), TG(O-13:0/18:4(6Z,9Z,12Z,15Z)/18:3(9Z,12Z,15Z)), TG(O-13:0/20:5(5Z,8Z,11Z,14Z,17Z)/16:2(9Z,12Z)), TG(O-13:0/22:6(4Z,7Z,10Z,13Z,16Z,19Z)/14:1(9Z))
Joint colormap: for all wells/datasets, the same colormap is used to represent ion intensities.
Violin plots of marker intensities (nonzero only, hotspot-clipped)